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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa08LNT0420100.1

GACACAGCATGCATTGCATTGCGTGGGTTTACTTTTCTTATTCTTTTTACAGCAGTGAGCCAATGATGCATCAAGCAGCACCAGCAGTTGCGAAAAGCATACAGGTTAACTGCAAATGCAGGATCAATTTATTCTAAAATCTAAACAGGTTTCAATGAAAATTTACAACGATCGTGTTCGAAGTTTCGATTCCACCCTAGGAGCAGTAAGAAAACACAGTTGATTTGCCGAAACATGTTTCTGTGCTCCATCTGATTGCAAGAATTATGGCAGTATCAGGTTTTGCCTAAACATTTTCTTCATAGCTCTGCCCTGGATTCGTAGTCGACATTGCTGTCCTTAAGAGTGGCCAATGTCCTGATGATAGACTCGTATATCCCAATCCCTTTGAGGTACTCATCTTTGCTCAGAAACTCATTGTGATCATGGAGCAATATCGGTGTGTTTGTCATTGGAGAAAAACCAAATGCTGGTATCCCAAGCACCCGAAAGTAACGAGCATCAGTAGAGGCCGGGAATATTTCCGGCTTACCAAGTTTGCCACCGGCTCTCTTCACAGCCTCTTCAAATAGAGCCCACCATACATTTGAGCTATCAGCAGGGGTGACGGCTGGCTTGCCAAAGTTGTCAAGTACAGAGGTCTTTTGTTTGAACTCAAATGTCAAGTTGCGTGAAGAAGGTGCCCATTCTTCAGCAAGACGCTTCTCTAGAGCCTCAGTATGAACACTAGGAGGGAGTCGGATGTCTAGACCTATCTCTGCTTCAGATGGTTGTAGATTCATGACAAAACCCGTTGGTGTCGGTGTGCCAGCCTTCAAGTATGCAAAATTCACTGATACAACATCCCCTTCAGCCTTTGCTCCGGACTTGACCAAATCAAACTGTGATGTTCTGAACCTCCTAATTGCTTCCACACTCTTCATCAAATTCTCCATTGCGCTACCATCATACAGCTTTGCACCATGCCCTGGGGCTCCTTTAGCTTTAATAGTAAGCCACCAAGGACTACGCTCCCCATAGAACACGCGGTACTCCTCCCCAGGTGATGCAAGCCCTTCATCGAGAACCAAACCTACATTCATGTCTTTGAACTCCTTTGATGCAACAAATGCTTCTATACCCTCATGCCCACCAATTTCTTCATCTGGAACAAATGTAAGATAGATATTCCGATCTGGGATAAAGCCTGCACTACGAAGACGGCGGATGGCTTCAAGGTACTGCATCCCCACGCACTTCATGTCCTGGGAGCCACGCGCGTAGATGCGGCCGGATGCCTCGTCGAGGGCGGCGGAGAAGGGCGGGTGGTCCCACTTGTGCGGCTCCGACGGCACGACGTCGGTGTGGGAGTTGAGGAGCAGCGAAGGGAGCGACGGGCGCCGCCCGGGCCACCGGAGCAGCAGCAGGGGCTTGCCGGCGACGAGCTCGAGCGTGCGCGCCTCGAGCCCCGCGGCGCCGGCCTGCCCCCGGAGGAACGCCACCGCCGCGGCGTAGTCCGGCGCCGGCTGCGCCGTGTCGATGCGGAGGTACTCCCGGAACCGGGAGACCACCGCCTCCTCCGCGTCCGACGACGAGACGGCTGGCACGGGGAGGACGAGGAGGAGACCGAGGAGAAGGCTGGCGGCGGCGGCGGCCATGGGAGACGCCTGCGTCGAGCTCTTCTTGCTCGCCATTGCGAGCAGGTGAGATGAGAAGCGAGAGCCGTGGGCTCGTGGCGGCGGCCGCGGAGGGAGGGGCTTTGCAGCTCGTGGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.91788
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0420100.1 8 25388859 T G
Osa08LNT0420100.1 8 25388899 T G
Osa08LNT0420100.1 8 25389731 A G
Osa08LNT0420100.1 8 25390828 G A
Osa08LNT0420100.1 8 25391182 C A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa08LNT0420100.1 osa-miR5834 Cleavage 2.5 9.047 1 21
Osa08LNT0420100.1 osa-miR167a-5p Translation 4.0 13.595 1 21
Osa08LNT0420100.1 osa-miR167b Translation 4.0 13.595 1 21
Osa08LNT0420100.1 osa-miR167c-5p Translation 4.0 13.595 1 21
Osa08LNT0420100.1 osa-miR159c Translation 5.0 18.69 1 21
Osa08LNT0420100.1 osa-miR159d Translation 5.0 18.69 1 21
Osa08LNT0420100.1 osa-miR159e Translation 5.0 18.69 1 21
Osa08LNT0420100.1 osa-miR167d-5p Translation 4.0 13.595 1 21
Osa08LNT0420100.1 osa-miR167e-5p Translation 4.0 13.595 1 21
Osa08LNT0420100.1 osa-miR167f Translation 4.0 13.595 1 21
Osa08LNT0420100.1 osa-miR167g Translation 4.0 13.595 1 21
Osa08LNT0420100.1 osa-miR167h-5p Translation 4.0 13.595 1 21
Osa08LNT0420100.1 osa-miR167i-5p Translation 4.0 13.595 1 21
Osa08LNT0420100.1 osa-miR167j Translation 4.0 13.595 1 21
Osa08LNT0420100.1 osa-miR5073 Translation 5.0 24.375 1 23
Osa08LNT0420100.1 osa-miR5083 Cleavage 5.0 19.027 1 20
Osa08LNT0420100.1 osa-miR5145 Cleavage 3.0 9.479 1 24
Osa08LNT0420100.1 osa-miR5487 Translation 4.0 8.071 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0420100.1 8 nan Resistance or Tolerance Drought tolerance RG978 RZ66
Osa08LNT0420100.1 8 dth8 Physiological trait Flowering RG333 RZ66
pre-miRNA
Transcript ID Pre-miRNA Identity(%) Alignment Length Pre-miRNA start Pre-miRNA end E-value Bitscore
GWAS
Transcript ID Chromosome Locus Trait Value Plus Minus